Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 96 of 121
Found at i:16332246 original size:49 final size:47
Alignment explanation
Indices: 16332180--16332308 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 47
16332170 TTATTTTTCA
* *
16332180 TTATTATTATGAT-TATTATTATTATTATTATTTATCTATTAATATTTTT
1 TTATTATT-T-ATCTATTATTATTATTTTTATTTATCTATTAATA-TATT
* *
16332229 TTATTTTTTTATCTATTATTATTATTTTTTTAGTTATCTATTAATATATT
1 TTA-TTATTTATCTATTATTATTA--TTTTTATTTATCTATTAATATATT
*
16332279 TTATTATTTATCTATTATTTTTATTTTTAT
1 TTATTATTTATCTATTATTATTATTTTTAT
16332309 CTTTTTTCTT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
47 6 0.09
48 2 0.03
49 33 0.48
50 10 0.14
51 18 0.26
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (47 bp):
TTATTATTTATCTATTATTATTATTTTTATTTATCTATTAATATATT
Found at i:16332303 original size:52 final size:52
Alignment explanation
Indices: 16332166--16332308 Score: 152
Period size: 52 Copynumber: 2.8 Consensus size: 52
16332156 TTAATTTAAT
* *
16332166 TTAAT-TATTTTTCATTA-TTATTATGATTATTATTATTATTATTATTTATCTA
1 TTAATATA-TTTT-ATTATTTATTATTATTATTATTATTATTATTAGTTATCTA
* *
16332218 TTAATAT-TTTT-TTATTTTTTTATCTATTATTATTATT-TTTTTAGTTATCTA
1 TTAATATATTTTATTA-TTTATTAT-TATTATTATTATTATTATTAGTTATCTA
* *
16332269 TTAATATATTTTATTATTTATCTATTATTTTTATTTTTAT
1 TTAATATATTTTATTATTTAT-TATTATTATTATTATTAT
16332309 CTTTTTTCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
49 3 0.04
51 29 0.38
52 36 0.47
53 8 0.11
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (52 bp):
TTAATATATTTTATTATTTATTATTATTATTATTATTATTATTAGTTATCTA
Found at i:16333147 original size:11 final size:11
Alignment explanation
Indices: 16333116--16333150 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
16333106 GTTCCAGATT
* *
16333116 TTTTTTTCTCA
1 TTTTTTTATTA
16333127 TTTTTTTATTA
1 TTTTTTTATTA
16333138 TTTTTTTATTA
1 TTTTTTTATTA
16333149 TT
1 TT
16333151 ATTTATTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTATTA
Found at i:16333420 original size:15 final size:15
Alignment explanation
Indices: 16333400--16333435 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
16333390 TCAATTTTTC
16333400 TTAAAAATAAAATTT
1 TTAAAAATAAAATTT
16333415 TT-AAAATAAAATTT
1 TTAAAAATAAAATTT
*
16333429 TCAAAAA
1 TTAAAAA
16333436 ATATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAAAAATAAAATTT
Found at i:16336615 original size:35 final size:35
Alignment explanation
Indices: 16336552--16336631 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
16336542 TGGGGTACAT
*
16336552 GTATTATCTATTAAGATGCCTGAAATGTAATGCAC
1 GTATTATCTATTAAGATGCATGAAATGTAATGCAC
* ** *
16336587 GTATTATCTATTAGGATGCATGGGATGTAGTGCAC
1 GTATTATCTATTAAGATGCATGAAATGTAATGCAC
* *
16336622 ATACTATCTA
1 GTATTATCTA
16336632 ATTGTTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (35 bp):
GTATTATCTATTAAGATGCATGAAATGTAATGCAC
Found at i:16338882 original size:35 final size:35
Alignment explanation
Indices: 16338843--16338912 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
16338833 ATTTAATATG
*
16338843 TAAAAAATATTATCAACAATTTAAATTAAATATAA
1 TAAAAAATATTATCAACAACTTAAATTAAATATAA
* *
16338878 TAAAAGATATTATCAATAACTTAAATTAAATATAA
1 TAAAAAATATTATCAACAACTTAAATTAAATATAA
16338913 ATTATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (35 bp):
TAAAAAATATTATCAACAACTTAAATTAAATATAA
Found at i:16339732 original size:27 final size:27
Alignment explanation
Indices: 16339700--16339760 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
16339690 TGAGGGGCAA
*
16339700 TGTTGGGGGTTTTAGGACTTAAGGCGG
1 TGTTGGGGGTTCTAGGACTTAAGGCGG
* *
16339727 TGTTGGGGGTTCTAGGACTTAGGGTGG
1 TGTTGGGGGTTCTAGGACTTAAGGCGG
16339754 TGTTGGG
1 TGTTGGG
16339761 AGTGTTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.11, C:0.07, G:0.48, T:0.34
Consensus pattern (27 bp):
TGTTGGGGGTTCTAGGACTTAAGGCGG
Found at i:16340529 original size:6 final size:6
Alignment explanation
Indices: 16340519--16340557 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
16340509 TTTTTTTAAC
* *
16340519 AAAATA GAAATA AAAATA AAAATA ATAATA ATAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AA
16340558 TAAAATTAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:16340801 original size:15 final size:15
Alignment explanation
Indices: 16340777--16340812 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16340767 TACTTAAATT
16340777 AATC-AAATTATTCA
1 AATCAAAATTATTCA
16340791 AATCAAAATTATTCA
1 AATCAAAATTATTCA
16340806 AATCAAA
1 AATCAAA
16340813 CGTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.31
Consensus pattern (15 bp):
AATCAAAATTATTCA
Found at i:16344445 original size:13 final size:14
Alignment explanation
Indices: 16344410--16344461 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
16344400 ATTTTAAATT
*
16344410 TTATAATTTTTTAA
1 TTATAATTTTTTTA
*
16344424 TAATAATTTTTTTA
1 TTATAATTTTTTTA
*
16344438 TTAT-ATTTATTTA
1 TTATAATTTTTTTA
16344451 TTAATAATTTT
1 TT-ATAATTTT
16344462 AAAAAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 10 0.32
14 17 0.55
15 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATAATTTTTTTA
Found at i:16345977 original size:3 final size:3
Alignment explanation
Indices: 16345966--16346016 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
16345956 TTGTTGTGAA
*
16345966 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16346014 ATT
1 ATT
16346017 CCATTCTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:16346215 original size:52 final size:50
Alignment explanation
Indices: 16346152--16346280 Score: 141
Period size: 52 Copynumber: 2.5 Consensus size: 50
16346142 ATTAAAACTA
* * *
16346152 ATTTTAAAATTATCCTAACTCTTTGGCAAAATCCTAAAATTTTATTAAATTG
1 ATTTTAAAATTATCCTAACTCTTTGACAAAATCCTAAAA-ATT-TTAAATAG
* * ** *
16346204 ATTTTAAAATTATCATGACTCTTAAACAGAATCCTAAAAATTTTAAATAG
1 ATTTTAAAATTATCCTAACTCTTTGACAAAATCCTAAAAATTTTAAATAG
* * *
16346254 ATTTTAAGATCATCCTAACTTTTTGAC
1 ATTTTAAAATTATCCTAACTCTTTGAC
16346281 GGGATTTTAA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
50 27 0.44
51 2 0.03
52 33 0.53
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (50 bp):
ATTTTAAAATTATCCTAACTCTTTGACAAAATCCTAAAAATTTTAAATAG
Found at i:16346578 original size:142 final size:145
Alignment explanation
Indices: 16346423--16346726 Score: 365
Period size: 140 Copynumber: 2.1 Consensus size: 145
16346413 TTATTATTTT
* * *
16346423 CTATTTATTATTTTCATCTTT-TTTCTCTTATTATTTAAATAAATATTTATTTAGTAAAAATAAC
1 CTATTTTTTATTTTCAT-TTTGTTTCTATTATTATTTAAATAAATATTAATTTAGTAAAAATAAC
* *
16346487 TTTTTGGATTAT-TCCAACACTTTTGTGAAATCCA-AAA-AAATATTTTTGGTAATAATTAGGAA
65 TTTTTGGATTATCT-CAACACTTTGGTGAAATCCAGAAATAAATATTTTTGGTAATAATTAAGAA
16346549 ATTTAATTTTAAA-AAA-A
129 ATTT-A-TTTAAACAAACA
* * *
16346566 -TATTTTTTATTTT--TTTTGTTTTTATTATTATTTAAATAAATATTAATTTAGTGAAAATAATT
1 CTATTTTTTATTTTCATTTTGTTTCTATTATTATTTAAATAAATATTAATTTAGTAAAAATAACT
* * * * * *
16346628 TTTTGGATTATCTCAACCCTTTGGTGAAATCTAGAAATATATTTTTTTTGTAATAATTAAGAGAT
66 TTTTGGATTATCTCAACACTTTGGTGAAATCCAGAAATAAATATTTTTGGTAATAATTAAGAAAT
16346693 TTATTTAAACAAACA
131 TTATTTAAACAAACA
*
16346708 CTTTTTTTTATTATTCATT
1 CTATTTTTTATT-TTCATT
16346727 GTTTTTTTTT
Statistics
Matches: 136, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
139 3 0.02
140 74 0.54
141 8 0.06
142 37 0.27
143 10 0.07
144 2 0.01
146 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (145 bp):
CTATTTTTTATTTTCATTTTGTTTCTATTATTATTTAAATAAATATTAATTTAGTAAAAATAACT
TTTTGGATTATCTCAACACTTTGGTGAAATCCAGAAATAAATATTTTTGGTAATAATTAAGAAAT
TTATTTAAACAAACA
Found at i:16347763 original size:12 final size:11
Alignment explanation
Indices: 16347716--16347763 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
16347706 ATAAAAAACT
*
16347716 AAAATTTTATG
1 AAAATTTTATA
*
16347727 AAAATTTTACA
1 AAAATTTTATA
*
16347738 AAAAATTTATTA
1 AAAATTTTA-TA
16347750 AAAATATTTATA
1 AAAAT-TTTATA
16347762 AA
1 AA
16347764 CTAATGAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 17 0.57
12 9 0.30
13 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAATTTTATA
Found at i:16356455 original size:12 final size:12
Alignment explanation
Indices: 16356434--16356463 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16356424 CAATAATATA
*
16356434 TAAAAAATTATT
1 TAAAATATTATT
16356446 TAAAATATTATT
1 TAAAATATTATT
16356458 TAAAAT
1 TAAAAT
16356464 TAAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:16358362 original size:13 final size:13
Alignment explanation
Indices: 16358344--16358368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16358334 GATGGTTAAT
16358344 CTGTCAGTATAGA
1 CTGTCAGTATAGA
16358357 CTGTCAGTATAG
1 CTGTCAGTATAG
16358369 CTTGAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (13 bp):
CTGTCAGTATAGA
Found at i:16358468 original size:24 final size:24
Alignment explanation
Indices: 16358436--16358482 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16358426 CTCTTTTTTG
16358436 AATTATATTT-TCAATTATTAATATT
1 AATTATATTTAT-AATTA-TAATATT
16358461 AATT-TATTTATAATTATAATAT
1 AATTATATTTATAATTATAATAT
16358483 GATAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 10 0.48
25 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATTATAATATT
Found at i:16359568 original size:62 final size:60
Alignment explanation
Indices: 16359490--16359679 Score: 186
Period size: 62 Copynumber: 3.1 Consensus size: 60
16359480 TATTCAAGCT
*
16359490 TTTTTAGCCAAAAATGCCTTGAATAATCTCTTCAATAAATTTTATAAGGGATTATTGAAGGTG
1 TTTTT-GCCAAAAATGCCTTAAATAATC-CTTCAA-AAATTTTATAAGGGATTATTGAAGGTG
* * **
16359553 TTTTTGCCCAAAATGCCTTAAATAATCCATTCCAAAATTTGT-TAAAGGGATTATTGAAGACG
1 TTTTTGCCAAAAATGCCTTAAATAATCC-TTCAAAAATTT-TAT-AAGGGATTATTGAAGGTG
** * * * * *
16359615 TTTTTGTTAGAAATGCCTTCAATAATCCCTTACAAAAAATTTA-ATGGGATTATTCAAGGTG
1 TTTTTGCCAAAAATGCCTTAAATAAT-CCTT-CAAAAATTTTATAAGGGATTATTGAAGGTG
16359676 TTTT
1 TTTT
16359680 CGATAAAAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
61 26 0.25
62 65 0.62
63 14 0.13
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (60 bp):
TTTTTGCCAAAAATGCCTTAAATAATCCTTCAAAAATTTTATAAGGGATTATTGAAGGTG
Found at i:16362340 original size:52 final size:53
Alignment explanation
Indices: 16362221--16362341 Score: 147
Period size: 53 Copynumber: 2.3 Consensus size: 53
16362211 TATAACCATA
* * * *
16362221 CAAACTTGCCTATTAATAATCTCTTTCCTCTTATAATTCTTTCTCATGCAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCATTCTCATACAAGT
* * *
16362274 CAAACTTGCTTATTAAGAATC-CTTTTCTTCTTAGAATT-ATTCTCTTACAAGT
1 CAAACTTGCCTATTAAGAATCTC-TTTCCTCTTAGAATTCATTCTCATACAAGT
*
16362326 CAAACTTACCTATTAA
1 CAAACTTGCCTATTAA
16362342 AAATTTTCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 26 0.45
53 32 0.55
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.42
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCTCTTTCCTCTTAGAATTCATTCTCATACAAGT
Found at i:16362377 original size:52 final size:52
Alignment explanation
Indices: 16362221--16362378 Score: 158
Period size: 52 Copynumber: 3.0 Consensus size: 52
16362211 TATAACCATA
* * * *
16362221 CAAACTTGCCTATTAATAA-TCTCTTTCCTCTTATAATTCTTTCTCATGCAAGT
1 CAAACTTGCCTATTAAAAATTCTCTTT-CTTTTAAAATTC-TTCTCTTGCAAGT
* * * * * *
16362274 CAAACTTGCTTATTAAGAATCCT-TTTCTTCTTAGAATTATTCTCTTACAAGT
1 CAAACTTGCCTATTAAAAATTCTCTTTCTT-TTAAAATTCTTCTCTTGCAAGT
* * *
16362326 CAAACTTACCTATTAAAAATTTTCTTTCTTTTAAAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAAAATTCTCTTTCTTTTAAAATTCTTCTCTTGCAAGT
16362378 C
1 C
16362379 TTCTTGTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
52 50 0.59
53 33 0.39
54 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (52 bp):
CAAACTTGCCTATTAAAAATTCTCTTTCTTTTAAAATTCTTCTCTTGCAAGT
Found at i:16363333 original size:52 final size:51
Alignment explanation
Indices: 16363251--16363392 Score: 144
Period size: 52 Copynumber: 2.8 Consensus size: 51
16363241 ATAACCATAT
* * *
16363251 AAACTTGCTTATTAAGAATTCATTTTCTCTTATAATTCTTCTCATGCAAGTC
1 AAACTTGCCTATTAAGAA-TCATTTTCTCTTAGAATTCTTCTCATACAAGTC
* * * *
16363303 AAACTTGCCTATTAAGAATCTTTTTCCTCTTAGAATTTTTTTCCTACAAGTC
1 AAACTTGCCTATTAAGAATCATTTT-CTCTTAGAATTCTTCTCATACAAGTC
* * * *
16363355 AAACTTACCTA--AAGAATCCTCTTTTTCTTAAAATTCTT
1 AAACTTGCCTATTAAGAATCAT-TTTCTCTTAGAATTCTT
16363393 TTTTGCAAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
50 19 0.25
51 9 0.12
52 48 0.63
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (51 bp):
AAACTTGCCTATTAAGAATCATTTTCTCTTAGAATTCTTCTCATACAAGTC
Found at i:16364345 original size:52 final size:51
Alignment explanation
Indices: 16364255--16364396 Score: 144
Period size: 52 Copynumber: 2.7 Consensus size: 51
16364245 TATTACCATA
* * * *
16364255 CAAACTTGCCTATTAAAAATCCCTTTCTTCTTAAAATTCTGCTCTTGCAAAT
1 CAAACTT-ACTATTAAAAATCTCTTTCCTCTTAGAATTCTGCTCTTGCAAAT
* * * *
16364307 TAAACATGT-CTATTAAAAATCTCTTTCCTCTTAGAATTCTTCTCTTTCAAGT
1 CAAAC-T-TACTATTAAAAATCTCTTTCCTCTTAGAATTCTGCTCTTGCAAAT
*
16364359 CAAACTTACATATTAAGAATCTTCTTT-CTCTTAGAATT
1 CAAACTTAC-TATTAAAAATC-TCTTTCCTCTTAGAATT
16364397 TTTCTTTTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
50 1 0.01
51 2 0.03
52 66 0.87
53 6 0.08
54 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (51 bp):
CAAACTTACTATTAAAAATCTCTTTCCTCTTAGAATTCTGCTCTTGCAAAT
Found at i:16364744 original size:25 final size:25
Alignment explanation
Indices: 16364691--16364746 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
16364681 AACCATACTT
* * *
16364691 TTCTCATGTCTTGAACTTTCAGCTT
1 TTCTCATATCTTGAACCTTCAGCTC
16364716 TTCTCATATCTTGAACCTTC-GACTC
1 TTCTCATATCTTGAACCTTCAG-CTC
16364741 TTCTCA
1 TTCTCA
16364747 CGTCTCAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.18, C:0.29, G:0.09, T:0.45
Consensus pattern (25 bp):
TTCTCATATCTTGAACCTTCAGCTC
Found at i:16365261 original size:52 final size:52
Alignment explanation
Indices: 16365182--16365285 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
16365172 ATAACAATAT
* *
16365182 AAACTTGCCTATTAAGAATCCCTTTTCTCTTAGAATTCTTCTTCTGCAAGTC
1 AAACTTGCCTATTAAAAATCCCTTTTCTCTTAAAATTCTTCTTCTGCAAGTC
*
16365234 AAACTTGCCTATTAAAAAT-CCTCTTTCTCTTAAAATTCTTCTTTTGCAAGTC
1 AAACTTGCCTATTAAAAATCCCT-TTTCTCTTAAAATTCTTCTTCTGCAAGTC
16365286 TTCTTATTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 3 0.06
52 45 0.94
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (52 bp):
AAACTTGCCTATTAAAAATCCCTTTTCTCTTAAAATTCTTCTTCTGCAAGTC
Found at i:16370943 original size:21 final size:20
Alignment explanation
Indices: 16370904--16370943 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16370894 TTAATACAAC
* *
16370904 ATTTTATTTTTTTATTTAAA
1 ATTTTATTATTTTAATTAAA
16370924 ATTTTATTAATTTTAATTAA
1 ATTTTATT-ATTTTAATTAA
16370944 TTTTTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTATTATTTTAATTAAA
Found at i:16371348 original size:19 final size:20
Alignment explanation
Indices: 16371320--16371358 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16371310 TAATTTTGTA
16371320 TTATTATT-AAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
*
16371339 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
16371359 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTATTATTAAAGTTTATTTT
Found at i:16372439 original size:18 final size:17
Alignment explanation
Indices: 16372412--16372447 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16372402 TCAGATAAGG
16372412 AAAAAAAAAAGAAGGAA
1 AAAAAAAAAAGAAGGAA
*
16372429 AAAAAAGAAAAGAATGAA
1 AAAAAA-AAAAGAAGGAA
16372447 A
1 A
16372448 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAGAAGGAA
Found at i:16372840 original size:48 final size:48
Alignment explanation
Indices: 16372629--16373157 Score: 540
Period size: 48 Copynumber: 11.0 Consensus size: 48
16372619 TTGAAAATTT
*
16372629 AAAAAGCTCCTT-TAAGCAGAGGCTCAACAACTTT-AAAATTTATTTTG
1 AAAAAGCT-CTTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
* * * *
16372676 AAAAAGCTCCTCTCAGTAGAGGCTTAACAACTTTTAAAAATTTCATCTTG
1 AAAAAGCTCTTCTAAGCAGAGGCTCAACAAC-TTTAAAAATTT-ATCTTG
* * *
16372726 AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATTTTATC-TG
1 AAAAA-GCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAA-TTTATCTTG
* *
16372775 AAAAAAGCTCTTCTAAGCAGAAGCTCAACAACTTTAAAAATCTATCTTG
1 -AAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
* * * *
16372824 AAAAAGCTCTTCTAAGCAAAAGCTCAACAACTCTAAAAATTCATCTTG
1 AAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
16372872 AAAAAAG-T-TTCTATCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
1 -AAAAAGCTCTTCTA--AGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
* * * * * * *
16372921 GAAAAGCTCCTT-TCAGCATAGGCTCAATAGCTTT-AAAATTCCATCTTA
1 AAAAAGCT-CTTCTAAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTG
* * *
16372969 AAAAAGCTCCTCTAAGCAAAGGCTTAACAACTTTAAAAATTTATCTTG
1 AAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
* * * *
16373017 AAAAAGCACATT-TCAA-CAGAGGCTCAACAATTTTAAAAATTCATTTTG
1 AAAAAGCTC-TTCT-AAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
* * * * *
16373065 AAAAAGTTCATCTAAGTAGAAGCTCAATAACTTTAAAAATTCTAT-TTG
1 AAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTG
* *
16373113 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAATTTATCT
1 AAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCT
16373158 GTCTCAAAAC
Statistics
Matches: 403, Mismatches: 56, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
46 5 0.01
47 47 0.12
48 206 0.51
49 89 0.22
50 27 0.07
51 29 0.07
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (48 bp):
AAAAAGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG
Found at i:16385023 original size:22 final size:20
Alignment explanation
Indices: 16384984--16385023 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
16384974 TAATGCAAAC
*
16384984 ATTTTATTTTTTATTTAAAA
1 ATTTTATTTTTTAATTAAAA
16385004 ATTTTATTAATTTTAATTAA
1 ATTTTATT--TTTTAATTAA
16385024 TTTTTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTATTTTTTAATTAAAA
Found at i:16386360 original size:23 final size:23
Alignment explanation
Indices: 16386326--16386374 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
16386316 TTTATAGAAC
16386326 TTTCTGATATTCAAATCTCAGAT
1 TTTCTGATATTCAAATCTCAGAT
* *
16386349 TTTCTAGA-ATTCTAATCTCATAT
1 TTTCT-GATATTCAAATCTCAGAT
16386372 TTT
1 TTT
16386375 TAACCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (23 bp):
TTTCTGATATTCAAATCTCAGAT
Found at i:16386521 original size:8 final size:8
Alignment explanation
Indices: 16386508--16386547 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
16386498 TCGAATAAGA
*
16386508 AAAAAAAG
1 AAAAAAAT
16386516 AAAAAAAT
1 AAAAAAAT
16386524 AAAAAAAT
1 AAAAAAAT
*
16386532 AAAATAAT
1 AAAAAAAT
16386540 AATAAAAA
1 AA-AAAAA
16386548 ATATAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 24 0.86
9 4 0.14
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:16386719 original size:2 final size:2
Alignment explanation
Indices: 16386712--16386753 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16386702 ACATGGTGTT
16386712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16386754 ATGATCGTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16387568 original size:18 final size:19
Alignment explanation
Indices: 16387540--16387575 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16387530 TTGGCAAATT
*
16387540 AACTTTATTTTTTATTTTA
1 AACTTTATTTTTAATTTTA
16387559 AACTTT-TTTTTAATTTT
1 AACTTTATTTTTAATTTT
16387576 CTTTTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (19 bp):
AACTTTATTTTTAATTTTA
Found at i:16387913 original size:22 final size:22
Alignment explanation
Indices: 16387888--16387987 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 22
16387878 TGTTAATATA
16387888 TAATTTAA-TAAAATTTTAAATT
1 TAATTTAATTAAAA-TTTAAATT
*
16387910 TAATTTAATTTAAATTTAAATT
1 TAATTTAATTAAAATTTAAATT
* *
16387932 TAAATATT-TTTAAAA-TT-ATTT
1 T-AAT-TTAATTAAAATTTAAATT
* *
16387953 TAATTTAAATTGAATTTTATTAATT
1 TAATTT-AATTAAAATTTA--AATT
16387978 TAATTTAATT
1 TAATTTAATT
16387988 TGATTTATCA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
19 2 0.03
20 3 0.05
21 8 0.13
22 21 0.34
23 12 0.20
24 6 0.10
25 9 0.15
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (22 bp):
TAATTTAATTAAAATTTAAATT
Found at i:16387914 original size:5 final size:5
Alignment explanation
Indices: 16387906--16387994 Score: 58
Period size: 5 Copynumber: 17.2 Consensus size: 5
16387896 TAAAATTTTA
* *
16387906 AATTT AATTT AATTT AAATTT AAATTT AAATATT --TTT AAAATT ATTTT
1 AATTT AATTT AATTT -AATTT -AATTT -AAT-TT AATTT -AATTT AATTT
* * *
16387954 AATTT AAATTG AATTT TA-TT AATTT AATTT AATTT GATTT A
1 AATTT -AATTT AATTT AATTT AATTT AATTT AATTT AATTT A
16387995 TCAAATTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
3 2 0.03
4 4 0.06
5 38 0.57
6 21 0.31
7 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:16387925 original size:6 final size:6
Alignment explanation
Indices: 16387902--16387936 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
16387892 TTAATAAAAT
16387902 TTTAAA TTT-AA TTT-AA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
16387937 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:16388004 original size:25 final size:26
Alignment explanation
Indices: 16387949--16388014 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
16387939 TTTTAAAATT
* *
16387949 ATTTTAATTTAAATTGAATTTTATTA
1 ATTTTAATTTAATTTGAATTTTATAA
16387975 A-TTTAATTTAATTTG-A-TTTATCAA
1 ATTTTAATTTAATTTGAATTTTAT-AA
*
16387999 ATTTTAAATTTTATTT
1 ATTTT-AATTTAATTT
16388015 TTTTGAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 5 0.15
24 3 0.09
25 16 0.47
26 10 0.29
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (26 bp):
ATTTTAATTTAATTTGAATTTTATAA
Found at i:16388566 original size:24 final size:25
Alignment explanation
Indices: 16388537--16388594 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
16388527 ATTATTTAGC
*
16388537 TAAAAATTATTA-ATTT-TTATTAAT
1 TAAAAATTATTATATTTGATATT-AT
*
16388561 TAAAAATAATTATATTTGATATTAT
1 TAAAAATTATTATATTTGATATTAT
16388586 TAAAAATTA
1 TAAAAATTA
16388595 AATATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.38
25 14 0.48
26 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TAAAAATTATTATATTTGATATTAT
Found at i:16396449 original size:2 final size:2
Alignment explanation
Indices: 16396442--16396481 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
16396432 ACAGCTTCAA
* *
16396442 AT AT AT AT AT AT AT GT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16396482 TAAGCTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16400284 original size:2 final size:2
Alignment explanation
Indices: 16400277--16400310 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16400267 TAGATTTCTT
16400277 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16400311 AAGCTTTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16400473 original size:29 final size:29
Alignment explanation
Indices: 16400429--16400500 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
16400419 TAAATATTTT
*
16400429 TTAAATTATAGTAAAATATTTAATATAATAT
1 TTAAATTATA--AAAATATTTAATATAATAC
* * * *
16400460 TTAAATTTTAAAAATTTTTAATGTGATAC
1 TTAAATTATAAAAATATTTAATATAATAC
16400489 TTAAATTATAAA
1 TTAAATTATAAA
16400501 TTTATTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 26 0.74
31 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (29 bp):
TTAAATTATAAAAATATTTAATATAATAC
Found at i:16402327 original size:27 final size:26
Alignment explanation
Indices: 16402258--16402327 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 26
16402248 TTTAAATAAT
* *
16402258 AATATGTTATGGATAAATAATTTTTTA
1 AATAT-TTATGTATTAATAATTTTTTA
16402285 AATATTATAT-TAATTAATAAGTTTATTTA
1 AATATT-TATGT-ATTAATAA-TTT-TTTA
16402314 AA-ATTTATGTATTA
1 AATATTTATGTATTA
16402328 TATTAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
26 1 0.03
27 22 0.61
28 7 0.19
29 6 0.17
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (26 bp):
AATATTTATGTATTAATAATTTTTTA
Found at i:16402388 original size:24 final size:21
Alignment explanation
Indices: 16402361--16402404 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16402351 ATAAGTTATT
16402361 TATGATATTAATGCAATTAAAAAA
1 TATG-TATTAAT--AATTAAAAAA
*
16402385 TATGTATTTATAATTAAAAA
1 TATGTATTAATAATTAAAAA
16402405 CTAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (21 bp):
TATGTATTAATAATTAAAAAA
Found at i:16403384 original size:22 final size:25
Alignment explanation
Indices: 16403352--16403404 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
16403342 GATATAAAAA
*
16403352 ATTAATAT-AAATTATTAATT-TTT
1 ATTAATATAAAATAATTAATTATTT
*
16403375 -TTAATGTAAAATAATTAATTATTT
1 ATTAATATAAAATAATTAATTATTT
16403399 ATTAAT
1 ATTAAT
16403405 CTGTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 6 0.24
23 11 0.44
24 3 0.12
25 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTAATATAAAATAATTAATTATTT
Found at i:16405343 original size:20 final size:21
Alignment explanation
Indices: 16405320--16405365 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
16405310 AGAAAAACCA
*
16405320 AAAATTTTTC-AAATTTTTCT
1 AAAATTCTTCAAAATTTTTCT
16405340 AAAA-TCTTCAAAATTTTTCT
1 AAAATTCTTCAAAATTTTTCT
16405360 AGAAAT
1 A-AAAT
16405366 CTAAAACCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.18
20 15 0.68
21 3 0.14
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (21 bp):
AAAATTCTTCAAAATTTTTCT
Found at i:16405796 original size:5 final size:5
Alignment explanation
Indices: 16405788--16405951 Score: 72
Period size: 5 Copynumber: 33.2 Consensus size: 5
16405778 TTAAAAAAAA
* *
16405788 ATAAT AT-A- ATAAT ATAAT ATAGT -TAGT ATAAT ATAAT ATAAT A-AAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * **
16405834 ATGAT ATAAT AATGAT ATAAC ATGAT ATAAT A-AGAT ATAAT A-ACC ATAAT
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT
* * ** * * * * * *
16405884 GTAGT ATCTT ACAAT ATACT ATAAT ATAAC ATATT AT-AT AATAAT ACATT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
16405934 ATAAT ATACTAT ATAAT A
1 ATAAT ATA--AT ATAAT A
16405952 CTATACCATA
Statistics
Matches: 114, Mismatches: 33, Indels: 24
0.67 0.19 0.14
Matches are distributed among these distances:
3 2 0.02
4 14 0.12
5 86 0.75
6 7 0.06
7 5 0.04
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:16405840 original size:19 final size:19
Alignment explanation
Indices: 16405799--16405865 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
16405789 TAATATAATA
* * * *
16405799 ATATAATATAGTTAGTATA
1 ATATAATATAATAAATATG
16405818 ATATAATATAATAAATATG
1 ATATAATATAATAAATATG
* *
16405837 ATATAATAATGATATAACATG
1 ATATAAT-ATAATA-AATATG
16405858 ATATAATA
1 ATATAATA
16405866 AGATATAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 22 0.55
20 6 0.15
21 12 0.30
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (19 bp):
ATATAATATAATAAATATG
Found at i:16405974 original size:28 final size:25
Alignment explanation
Indices: 16405909--16405974 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
16405899 ATACTATAAT
* * *
16405909 ATAACATATTATATAATAATACATT
1 ATAATATACTATATAATAATACATA
16405934 ATAATATACTATATAATACTATACCATA
1 ATAATATACTATATAATA--ATA-CATA
16405962 ATAATATACTATA
1 ATAATATACTATA
16405975 ATAAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.46
27 3 0.09
28 16 0.46
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAATATACTATATAATAATACATA
Found at i:16405975 original size:10 final size:10
Alignment explanation
Indices: 16405896--16405977 Score: 57
Period size: 10 Copynumber: 8.4 Consensus size: 10
16405886 AGTATCTTAC
16405896 AATATACTAT
1 AATATACTAT
16405906 AATATAAC-AT
1 AATAT-ACTAT
*
16405916 ATTATA-TAAT
1 AATATACT-AT
* *
16405926 AATACATTAT
1 AATATACTAT
16405936 AATATACTAT
1 AATATACTAT
16405946 -ATAATACTAT
1 AAT-ATACTAT
**
16405956 ACCATA--AT
1 AATATACTAT
16405964 AATATACTAT
1 AATATACTAT
16405974 AATA
1 AATA
16405978 AAAAAAATCA
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
8 6 0.11
9 3 0.05
10 43 0.78
11 3 0.05
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (10 bp):
AATATACTAT
Found at i:16410371 original size:20 final size:21
Alignment explanation
Indices: 16410348--16410395 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
16410338 TATTAATTTT
16410348 AAAATAAACTTTA-AAAAGTA
1 AAAATAAACTTTATAAAAGTA
*
16410368 AAAATAAACTTTATAATAGTA
1 AAAATAAACTTTATAAAAGTA
*
16410389 ATAATAA
1 AAAATAA
16410396 TAAGTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATAAACTTTATAAAAGTA
Found at i:16410748 original size:29 final size:28
Alignment explanation
Indices: 16410662--16410749 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
16410652 ATTTTGAGTG
*
16410662 AAAATACTTTAAAAATTTTCTAA-ATAA-
1 AAAATATTTTAAAAATTTT-TAATATAAT
* * * * * *
16410689 AAATTTTTTTAAATATTTTTAGTGTATT
1 AAAATATTTTAAAAATTTTTAATATAAT
16410717 AAAATATTTATAAAAATTTTTAATATAAT
1 AAAATATTT-TAAAAATTTTTAATATAAT
16410746 AAAA
1 AAAA
16410750 ATTCAAATTT
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
26 2 0.04
27 17 0.38
28 7 0.16
29 19 0.42
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
AAAATATTTTAAAAATTTTTAATATAAT
Found at i:16411248 original size:28 final size:28
Alignment explanation
Indices: 16411198--16411270 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
16411188 TCATCATTGT
*
16411198 ATTTTAAAAA-TTTAATATAATATTTAA
1 ATTTTAAAAATTTTAATTTAATATTTAA
*
16411225 ATTTTAAAAATTTTAATTTGATATTTAA
1 ATTTTAAAAATTTTAATTTAATATTTAA
* * *
16411253 ATTATAAATATATTAATT
1 ATTTTAAAAATTTTAATT
16411271 AAAATGATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 10 0.25
28 30 0.75
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (28 bp):
ATTTTAAAAATTTTAATTTAATATTTAA
Found at i:16411270 original size:15 final size:16
Alignment explanation
Indices: 16411252--16411310 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
16411242 TTGATATTTA
16411252 AATTATAAATAT-ATT
1 AATTATAAATATAATT
16411267 AATTA-AAATGATAATT
1 AATTATAAAT-ATAATT
* *
16411283 -ATTTTTAATATAATT
1 AATTATAAATATAATT
16411298 AATT-TAAAT-TAAT
1 AATTATAAATATAAT
16411311 AATATGTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 8 0.22
15 20 0.54
16 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTATAAATATAATT
Found at i:16411364 original size:33 final size:32
Alignment explanation
Indices: 16411317--16411380 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
16411307 TAATAATATG
**
16411317 TAATAAATAAATAATTTTTGATATTATATTAAT
1 TAATAAATAAATAATTTAAG-TATTATATTAAT
**
16411350 TAATAAATTTATAATTTAAGTATTATATTAA
1 TAATAAATAAATAATTTAAGTATTATATTAA
16411381 AAATTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
TAATAAATAAATAATTTAAGTATTATATTAAT
Found at i:16411388 original size:28 final size:28
Alignment explanation
Indices: 16411342--16411417 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
16411332 TTTTGATATT
16411342 ATATTA-ATTAATAAA-TTTATAATTTAA
1 ATATTATATTAA-AAATTTTATAATTTAA
* *
16411369 GTATTATATTAAAAATTTTAAAATTTAA
1 ATATTATATTAAAAATTTTATAATTTAA
* *
16411397 ATATCATATTAAATATTTTAT
1 ATATTATATTAAAAATTTTAT
16411418 TATAATTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.20
28 33 0.80
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
ATATTATATTAAAAATTTTATAATTTAA
Found at i:16412919 original size:221 final size:217
Alignment explanation
Indices: 16412506--16413168 Score: 596
Period size: 221 Copynumber: 3.0 Consensus size: 217
16412496 AGAATTAATG
* * * * * * * * *
16412506 TAAAATT-GATATCATTTGATATAAAATATGTTAAAAGTATCCTAATATCTTAAGAGAGAATTAT
1 TAAAATTAG-TATAATTTGATGTAAAATAAGTTAAAAGTATCATAACACCTTAACAAAAAATTAT
* * * *
16412570 AATAATTTTAAATGTAATAAAAATAAAAACAAACG-TAAAAAGATATTATTATAACATAAATAAT
65 AATAATTATAAACGTAATAAAAAT---AACAAAGGCTAAAAAGATATTATTATAACAAAAATAAT
* ** * *
16412634 TAAGTTAACAATATAAAAAAATTATTATCT-TAAATCCAAAAAACAATTATAAATCAACAAATAA
127 TAAATTAGTAATATAAAAAAATTATTAT-TATAAAT--AAAAAATAATTATAAATCAAAAAATAA
* *
16412698 ATGTTAGTGTAAAAATATGAGAATAATCG
189 ATGTTAGTGTAAAAATATAAGAATAATCA
* * *
16412727 TAAAATTAGTATAATTTAATGTAAAATAAGTTAAAAGTGTCATAACACCCTAACAAAAAATTATA
1 TAAAATTAGTATAATTTGATGTAAAATAAGTTAAAAGTATCATAACACCTTAACAAAAAATTATA
* *
16412792 ATAGTTATAAACGTAATGAAAAATAACAATAGGCATAAAAAGATATTATTGTAACAAAAATAATT
66 ATAATTATAAACGTAAT-AAAAATAACAA-AGGC-TAAAAAGATATTATTATAACAAAAATAATT
* * *
16412857 AAATTAGTAATATAAAAGAAA-TATTATTACAAATAAAAAAATAATTTTAGATCAAAAAATAAAA
128 AAATTAGTAATATAAAA-AAATTATTATTATAAAT-AAAAAATAATTATAAATCAAAAAAT-AAA
* * *
16412921 T-TTAATGTAAAAAAAGTAAAAATAATCA
190 TGTTAGTGTAAAAATA-TAAGAATAATCA
* * * * * * * *
16412949 TAAAATTAGTATTATTTGACGTAAAATGA-TTACAAA-TATAATTACACCTTAATAAAACATTGT
1 TAAAATTAGTATAATTTGATGTAAAATAAGTTA-AAAGTATCATAACACCTTAACAAAAAATTAT
* * * * * *
16413012 GATAATTCTAAACGTAATTAAAAGTAAC-AAGTG-TAAAAA-A-ATTATCAAAAC-ATAATAATT
65 AATAATTATAAACGTAA-TAAAAATAACAAAG-GCTAAAAAGATATTATTATAACAAAAATAATT
* * ** * * **
16413072 AAATTGGTAATATAAAAAAATTAGTATTATAAATAAAAAATAATCCTATACCAAAAAATAGGTGT
128 AAATTAGTAATATAAAAAAATTATTATTATAAATAAAAAATAATTATAAATCAAAAAATAAATGT
16413137 TCA-TGTAAAAATATAAGAATAATCA
193 T-AGTGTAAAAATATAAGAATAATCA
16413162 TAAAATT
1 TAAAATT
16413169 GATTTTTTTT
Statistics
Matches: 365, Mismatches: 62, Indels: 38
0.78 0.13 0.08
Matches are distributed among these distances:
213 20 0.05
214 35 0.10
215 36 0.10
216 8 0.02
217 1 0.00
218 6 0.02
219 7 0.02
220 4 0.01
221 144 0.39
222 101 0.28
223 3 0.01
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.31
Consensus pattern (217 bp):
TAAAATTAGTATAATTTGATGTAAAATAAGTTAAAAGTATCATAACACCTTAACAAAAAATTATA
ATAATTATAAACGTAATAAAAATAACAAAGGCTAAAAAGATATTATTATAACAAAAATAATTAAA
TTAGTAATATAAAAAAATTATTATTATAAATAAAAAATAATTATAAATCAAAAAATAAATGTTAG
TGTAAAAATATAAGAATAATCA
Found at i:16412947 original size:222 final size:221
Alignment explanation
Indices: 16412564--16412975 Score: 508
Period size: 222 Copynumber: 1.9 Consensus size: 221
16412554 CTTAAGAGAG
* * * *
16412564 AATTATAATAATTTTAAATGTAATAAAAATAAAAACAAACGTAAAAAGATATTATTATAACATAA
1 AATTATAATAATTATAAACGTAATAAAAATAAAAACAAACATAAAAAGATATTATTATAACAAAA
* * * *
16412629 ATAATTAAGTTAACAATATAAAAAAATTATTATCTTAAATCCAAAAAACAATTATAAATCAACAA
66 ATAATTAAATTAACAATATAAAAAAATTATTATCTCAAATCAAAAAAACAATTATAAATCAAAAA
* * * * * *
16412694 ATAAATGTTAGTGTAAAAATATGAGAATAATCGTAAAATTAGTATAATTTAATGTAAAATAAGTT
131 ATAAATGTTAATGTAAAAAAATAAAAATAATCATAAAATTAGTATAATTTAACGTAAAATAAGTT
16412759 AAAAGTGTCATAACACCCTAACAAAA
196 AAAAGTGTCATAACACCCTAACAAAA
* * * ** *
16412785 AATTATAATAGTTATAAACGTAATGAAAAATAACAATAGGCATAAAAAGATATTATTGTAACAAA
1 AATTATAATAATTATAAACGTAAT-AAAAATAAAAACAAACATAAAAAGATATTATTATAACAAA
** * * *
16412850 AATAATTAAATTAGTAATATAAAAGAAA-TATTAT-TACAAAT-AAAAAAATAATTTTAGATCAA
65 AATAATTAAATTAACAATATAAAA-AAATTATTATCT-CAAATCAAAAAAACAATTATAAATCAA
* *
16412912 AAAATAAAAT-TTAATGTAAAAAAAGTAAAAATAATCATAAAATTAGTATTATTTGACGTAAAAT
128 AAAAT-AAATGTTAATGTAAAAAAA-TAAAAATAATCATAAAATTAGTATAATTTAACGTAAAAT
16412976 GATTACAAAT
Statistics
Matches: 159, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
221 55 0.35
222 101 0.64
223 3 0.02
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (221 bp):
AATTATAATAATTATAAACGTAATAAAAATAAAAACAAACATAAAAAGATATTATTATAACAAAA
ATAATTAAATTAACAATATAAAAAAATTATTATCTCAAATCAAAAAAACAATTATAAATCAAAAA
ATAAATGTTAATGTAAAAAAATAAAAATAATCATAAAATTAGTATAATTTAACGTAAAATAAGTT
AAAAGTGTCATAACACCCTAACAAAA
Found at i:16413092 original size:17 final size:18
Alignment explanation
Indices: 16413072--16413109 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
16413062 CATAATAATT
*
16413072 AAATTGGTAATATAAA-A
1 AAATTAGTAATATAAATA
*
16413089 AAATTAGTATTATAAATA
1 AAATTAGTAATATAAATA
16413107 AAA
1 AAA
16413110 AATAATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATTAGTAATATAAATA
Found at i:16413570 original size:21 final size:22
Alignment explanation
Indices: 16413546--16413603 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
16413536 AGAACAAGTG
*
16413546 TAAAAAAATATTATT-GTAACA
1 TAAAAAAATATTATTGGCAACA
* *
16413567 T-AAATAATATTTTTGGCAACA
1 TAAAAAAATATTATTGGCAACA
16413588 TAAAAAAATTATTATT
1 TAAAAAAA-TATTATT
16413604 ACAAATAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 11 0.38
21 7 0.24
22 5 0.17
23 6 0.21
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
TAAAAAAATATTATTGGCAACA
Found at i:16415237 original size:16 final size:16
Alignment explanation
Indices: 16415216--16415248 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16415206 TCAGTTCTTC
16415216 TTTTTA-AATTATATTA
1 TTTTTATAATT-TATTA
16415232 TTTTTATAATTTATTA
1 TTTTTATAATTTATTA
16415248 T
1 T
16415249 AATATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTATAATTTATTA
Found at i:16415250 original size:10 final size:10
Alignment explanation
Indices: 16415235--16415273 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
16415225 TATATTATTT
*
16415235 TTATAATTTA
1 TTATAATATA
16415245 TTATAATATA
1 TTATAATATA
16415255 TTATGAA-ATA
1 TTAT-AATATA
16415265 TTATAATAT
1 TTATAATAT
16415274 TAATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (10 bp):
TTATAATATA
Found at i:16415508 original size:19 final size:19
Alignment explanation
Indices: 16415469--16415509 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16415459 CATATTTGAG
**
16415469 TTATATATTTTATTATTTT
1 TTATATATTTTATTAAATT
*
16415488 TTATATATTTTTTTAAATT
1 TTATATATTTTATTAAATT
16415507 TTA
1 TTA
16415510 ATTAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATATATTTTATTAAATT
Found at i:16418960 original size:20 final size:20
Alignment explanation
Indices: 16418935--16418974 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
16418925 AAATCCTTTA
16418935 AAAATT-GTTTTAGCAATGAT
1 AAAATTAGTTTT-GCAATGAT
16418955 AAAATTAGGTTTTGCAATGA
1 AAAATTA-GTTTTGCAATGA
16418975 ATTTTACCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
AAAATTAGTTTTGCAATGAT
Found at i:16419613 original size:12 final size:12
Alignment explanation
Indices: 16419593--16419633 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
16419583 AACTGTTTAT
16419593 TATTTAAAATAA
1 TATTTAAAATAA
* *
16419605 TATTAAAAATTA
1 TATTTAAAATAA
*
16419617 TTTTTAAAATAA
1 TATTTAAAATAA
16419629 TATTT
1 TATTT
16419634 TTATATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTTAAAATAA
Found at i:16419619 original size:22 final size:22
Alignment explanation
Indices: 16419591--16419657 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
16419581 AGAACTGTTT
16419591 ATTATTTAAAATAATATTAAAA
1 ATTATTTAAAATAATATTAAAA
** *
16419613 ATTATTTTTAAAATAATATTTTTAT
1 ATTA--TTTAAAATAATA-TTAAAA
16419638 ATT-TTTAAAATAATA-TAAAA
1 ATTATTTAAAATAATATTAAAA
16419658 TTTTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.06
22 16 0.44
24 12 0.33
25 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTATTTAAAATAATATTAAAA
Found at i:16419664 original size:22 final size:22
Alignment explanation
Indices: 16419595--16419665 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
16419585 CTGTTTATTA
*
16419595 TTTAAAATAATATTAAAAATTATT
1 TTTAAAATAATA-T-AAAATTTTT
**
16419619 TTTAAAATAATAT--TTTTATATT
1 TTTAAAATAATATAAAATT-T-TT
16419641 TTTAAAATAATATAAAATTTTT
1 TTTAAAATAATATAAAATTTTT
16419663 TTT
1 TTT
16419666 TTTTCAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 2 0.05
22 20 0.53
23 2 0.05
24 14 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTAAAATAATATAAAATTTTT
Found at i:16430136 original size:17 final size:16
Alignment explanation
Indices: 16430116--16430164 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
16430106 AAAAAAAAAA
16430116 TATAAAAAAGGAAAATT
1 TATAAAAAA-GAAAATT
16430133 TATAAAAAA-AAAATT
1 TATAAAAAAGAAAATT
*
16430148 TCTTAAAAAAGACAAAT
1 T-ATAAAAAAGA-AAAT
16430165 AATAACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.25
16 7 0.25
17 10 0.36
18 4 0.14
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.24
Consensus pattern (16 bp):
TATAAAAAAGAAAATT
Found at i:16430157 original size:15 final size:15
Alignment explanation
Indices: 16430106--16430148 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
16430096 AGAAAATGTG
16430106 AAAAAAAAAA--TAT
1 AAAAAAAAAATTTAT
16430119 AAAAAAGGAAAATTTAT
1 AAAAAA--AAAATTTAT
16430136 AAAAAAAAAATTT
1 AAAAAAAAAATTT
16430149 CTTAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.23
15 11 0.42
17 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (15 bp):
AAAAAAAAAATTTAT
Found at i:16435891 original size:6 final size:7
Alignment explanation
Indices: 16435861--16435897 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
16435851 ATAAAAAAAC
16435861 AAATAAA
1 AAATAAA
16435868 AAAGCTAAA
1 AAA--TAAA
16435877 AAATAAA
1 AAATAAA
16435884 AAATAAA
1 AAATAAA
16435891 AAATAAA
1 AAATAAA
16435898 TTATTTTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:16438198 original size:9 final size:9
Alignment explanation
Indices: 16438184--16438246 Score: 69
Period size: 9 Copynumber: 7.3 Consensus size: 9
16438174 AACAAAAAAT
16438184 AAAATCAAA
1 AAAATCAAA
16438193 AAAATCAAA
1 AAAATCAAA
*
16438202 AAAATTAAA
1 AAAATCAAA
*
16438211 AAAGTC-AA
1 AAAATCAAA
*
16438219 AAAAT-TAA
1 AAAATCAAA
*
16438227 AAAAT-TAA
1 AAAATCAAA
16438235 AAAATCAAA
1 AAAATCAAA
16438244 AAA
1 AAA
16438247 TTGAAAACAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
8 21 0.45
9 26 0.55
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (9 bp):
AAAATCAAA
Found at i:16438202 original size:8 final size:8
Alignment explanation
Indices: 16438184--16438247 Score: 74
Period size: 8 Copynumber: 7.6 Consensus size: 8
16438174 AACAAAAAAT
16438184 AAAATCAAA
1 AAAATC-AA
16438193 AAAATCAAA
1 AAAATC-AA
*
16438202 AAAATTAA
1 AAAATCAA
16438210 AAAAGTCAA
1 AAAA-TCAA
*
16438219 AAAATTAA
1 AAAATCAA
*
16438227 AAAATTAA
1 AAAATCAA
16438235 AAAATCAA
1 AAAATCAA
16438243 AAAAT
1 AAAAT
16438248 TGAAAACAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
8 29 0.58
9 21 0.42
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (8 bp):
AAAATCAA
Found at i:16438253 original size:8 final size:8
Alignment explanation
Indices: 16438200--16438253 Score: 72
Period size: 8 Copynumber: 6.5 Consensus size: 8
16438190 AAAAAAATCA
16438200 AAAAAATT
1 AAAAAATT
*
16438208 AAAAAAGTC
1 AAAAAA-TT
16438217 AAAAAATT
1 AAAAAATT
16438225 AAAAAATT
1 AAAAAATT
*
16438233 AAAAAATC
1 AAAAAATT
16438241 AAAAAATT
1 AAAAAATT
16438249 GAAAA
1 -AAAA
16438254 CAAAAAAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
8 29 0.73
9 11 0.28
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (8 bp):
AAAAAATT
Found at i:16438253 original size:17 final size:16
Alignment explanation
Indices: 16438191--16438247 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 16
16438181 AATAAAATCA
16438191 AAAAAATCAAAAAAATT
1 AAAAAATC-AAAAAATT
16438208 AAAAAAGTCAAAAAATT
1 AAAAAA-TCAAAAAATT
* *
16438225 AAAAAATTAAAAAATC
1 AAAAAATCAAAAAATT
16438241 AAAAAAT
1 AAAAAAT
16438248 TGAAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
16 15 0.41
17 20 0.54
18 2 0.05
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAAAATCAAAAAATT
Found at i:16444727 original size:12 final size:12
Alignment explanation
Indices: 16444706--16444735 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16444696 CAATAATATA
*
16444706 TAAAAAATTATT
1 TAAAATATTATT
16444718 TAAAATATTATT
1 TAAAATATTATT
16444730 TAAAAT
1 TAAAAT
16444736 TAAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:16446737 original size:24 final size:24
Alignment explanation
Indices: 16446705--16446751 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16446695 CTCTTTTTTG
16446705 AATTATATTT-TCAATTATTAATATT
1 AATTATATTTAT-AATTA-TAATATT
16446730 AATT-TATTTATAATTATAATAT
1 AATTATATTTATAATTATAATAT
16446752 GATATGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 10 0.48
25 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATTATAATATT
Found at i:16447839 original size:64 final size:63
Alignment explanation
Indices: 16447762--16447927 Score: 183
Period size: 63 Copynumber: 2.6 Consensus size: 63
16447752 ATTCAAGGCT
* * * * *
16447762 TTTTTAGCTAAAAATGCCTTGAATAATCTCTTCAATAAATTT-TTATAAGGGATTATTGAAGGTG
1 TTTTTAGCCAAAAATGCCTTAAATAATCCCTTCAA-AAATTTGTT-GAAGGGATTATTGAAAGTG
* * *
16447826 TTTTTGGCCAAAAATGCCTTAAATAA-CCCATTCCAAAATTTGTTGAGGGGATTATTGAAAGTG
1 TTTTTAGCCAAAAATGCCTTAAATAATCCC-TTCAAAAATTTGTTGAAGGGATTATTGAAAGTG
* * *
16447889 TTTTTAGTCAGAAATGCCTTCAATAATCCCTTACAAAAA
1 TTTTTAGCCAAAAATGCCTTAAATAATCCCTT-CAAAAA
16447928 ATTTAATGAG
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
63 48 0.56
64 37 0.44
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (63 bp):
TTTTTAGCCAAAAATGCCTTAAATAATCCCTTCAAAAATTTGTTGAAGGGATTATTGAAAGTG
Found at i:16448378 original size:63 final size:64
Alignment explanation
Indices: 16448299--16448422 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 64
16448289 ACATTAGCCA
* ** *
16448299 AAAACACCTTCAATAATCC-TTTGTAAAATTTTTTGTATG-GACTATTGAAGGCATTTTTTGGTG
1 AAAACACCTTCAATAATCCATCTCCAAAATTTTTTGAATGCG-CTATTGAAGGCATTTTTTGGTG
* *
16448362 AAAACACCTTTAATAATCCATCTCCAAAATTTTTTGAATGCGTTATTGAAGGCATTTTTTG
1 AAAACACCTTCAATAATCCATCTCCAAAATTTTTTGAATGCGCTATTGAAGGCATTTTTTG
16448423 CCAGAAATGC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 18 0.34
64 34 0.64
65 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (64 bp):
AAAACACCTTCAATAATCCATCTCCAAAATTTTTTGAATGCGCTATTGAAGGCATTTTTTGGTG
Found at i:16450539 original size:52 final size:50
Alignment explanation
Indices: 16450450--16450595 Score: 159
Period size: 52 Copynumber: 2.8 Consensus size: 50
16450440 ATAACTATAT
* * * *
16450450 AAACTTGCCTA-TAAATAATCACTTTCCTCTTATAATTCTTTTCATGCAAGTC
1 AAACTTGCCTATTAAA-AATCTCTTT-CTTTTAGAATTCTTTT-ATACAAGTC
* * *
16450502 AAACTTGCTTATTAAGAATCTCTTTCTTTTTAGAATTCTTATTTTACAAGTC
1 AAACTTGCCTATTAAAAATCTCTTTC-TTTTAGAATTCTT-TTATACAAGTC
*
16450554 AAACTTGCCTATTAAAAATATTCTTTCTTTTAGAATTCTTTT
1 AAACTTGCCTATTAAAAAT-CTCTTTCTTTTAGAATTCTTTT
16450596 TTTTGTAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
51 3 0.04
52 66 0.82
53 11 0.14
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (50 bp):
AAACTTGCCTATTAAAAATCTCTTTCTTTTAGAATTCTTTTATACAAGTC
Found at i:16450936 original size:25 final size:25
Alignment explanation
Indices: 16450881--16450928 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16450871 TCAAACCATG
**
16450881 CTCTTTTCATGTCTTAAACCTTCAA
1 CTCTTTTCACATCTTAAACCTTCAA
16450906 CTCTTTTCACATCTTAAACCTTC
1 CTCTTTTCACATCTTAAACCTTC
16450929 GGTTCTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (25 bp):
CTCTTTTCACATCTTAAACCTTCAA
Found at i:16452564 original size:52 final size:52
Alignment explanation
Indices: 16452480--16452626 Score: 190
Period size: 52 Copynumber: 2.8 Consensus size: 52
16452470 TATAACCATA
* *
16452480 CAAACTTGCCTATTAAGAATCCATTTCCTCTTAGAATTCTTCTCCTGCAAGT
1 CAAACTTGCCTATTAAGAATCTATTTCTTCTTAGAATTCTTCTCCTGCAAGT
* * *
16452532 CAAA-TATGCCTATTAAGAATCTATTTCTTCTTAGAATTATTCTCTTTCAAGT
1 CAAACT-TGCCTATTAAGAATCTATTTCTTCTTAGAATTCTTCTCCTGCAAGT
* * *
16452584 CAAACTTACCTATTAAGAATATTTTTTCTT-TTAGAATTCTTCT
1 CAAACTTGCCTATTAAGAAT-CTATTTCTTCTTAGAATTCTTCT
16452627 TTTACAAGTC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 1 0.01
52 74 0.89
53 8 0.10
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.43
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTATTTCTTCTTAGAATTCTTCTCCTGCAAGT
Found at i:16453585 original size:52 final size:53
Alignment explanation
Indices: 16453506--16453650 Score: 192
Period size: 52 Copynumber: 2.8 Consensus size: 53
16453496 TATAACCATA
*
16453506 CAAACTTACCTATTAACAATC-TCTTTCCTCTTAAAATTCTTCTTCTGTA-A-GT
1 CAAACTTACCTATTAAGAATCATCTTTCCTCTTAAAATTCTT-TT-TGTACAGGT
* * *
16453558 CAAACTTGCCTATTAAGAATCAT-TTTCCTCTTAGAATTCTTTTTTTACAGGT
1 CAAACTTACCTATTAAGAATCATCTTTCCTCTTAAAATTCTTTTTGTACAGGT
*
16453610 CAAACTTACCTATTAAGAATCATCTTT-TTCTTAAAATTCTT
1 CAAACTTACCTATTAAGAATCATCTTTCCTCTTAAAATTCTT
16453651 ATTTTGCAAG
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
50 3 0.04
51 3 0.04
52 72 0.88
53 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (53 bp):
CAAACTTACCTATTAAGAATCATCTTTCCTCTTAAAATTCTTTTTGTACAGGT
Found at i:16456428 original size:2 final size:2
Alignment explanation
Indices: 16456421--16456458 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
16456411 GTACTTAAAT
16456421 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16456459 TTTACATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16459738 original size:19 final size:20
Alignment explanation
Indices: 16459710--16459748 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
16459700 TAATTTTATA
16459710 TTATTATTAAA-TTTATTTT
1 TTATTATTAAAGTTTATTTT
*
16459729 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
16459749 AAAAATCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTATTATTAAAGTTTATTTT
Found at i:16460794 original size:12 final size:11
Alignment explanation
Indices: 16460776--16460807 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
16460766 TTAATCAGAT
16460776 AAAGAAAAAAA
1 AAAGAAAAAAA
16460787 AGAAGAAAAAAA
1 A-AAGAAAAAAA
16460799 AAAGAAAAA
1 AAAGAAAAA
16460808 TAGAAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:16461223 original size:48 final size:49
Alignment explanation
Indices: 16461014--16461402 Score: 315
Period size: 48 Copynumber: 7.9 Consensus size: 49
16461004 TAAGAAGCTT
* * * * *
16461014 CTCTGAGCATAGGCTCAACAACTTT-AAAAT-TTATCTTGAAAAAGCTT
1 CTCTTAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAACTC
* * * * *
16461061 ATCTCAGCAAAGGCTTAACAACTTAAAAAAAAATCTCATCTTGAAAAAAGCTC
1 CTCTTAGCAGAGGCTCAACAACTT---TAAAAATCTCATCTTGAAAAAA-CTC
* * * * *
16461114 TTTTTAGTAAAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTC
1 CTCTTAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAACTC
* * * *
16461163 CTCTAAGCAGAGGCACAACAACTTTTAAAAT-TTATCTTGAAAAAACTC
1 CTCTTAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAACTC
* * *
16461211 CTCTTAGTAGAGGCTTAACAACTTTAAAAAAATCTCATCTT-AAAAAATGTTC
1 CTCTTAGCAGAGGCTCAACAACTTT--AAAAATCTCATCTTGAAAAAA--CTC
* * * *
16461263 CTCTCAGTAGAGGCTCAACAAATTTAAAAATCT-ATCTTGAAAAAGCTC
1 CTCTTAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAACTC
* * * * * *
16461311 TTCTAAGCAGATGCTCAACAACTTTAAAACTCTCATCTTGGAAAAAGT-
1 CTCTTAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAACTC
* * * *
16461359 TTCTATCAGCAGAGGCTCAATAACTGTAAAAAT-TTATCTTGAAA
1 CTCT-T-AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAA
16461403 GCGGCTCAAT
Statistics
Matches: 275, Mismatches: 52, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
47 20 0.07
48 69 0.25
49 52 0.19
50 66 0.24
51 11 0.04
52 36 0.13
53 21 0.08
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (49 bp):
CTCTTAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAACTC
Found at i:16461350 original size:149 final size:149
Alignment explanation
Indices: 16461008--16461339 Score: 454
Period size: 149 Copynumber: 2.2 Consensus size: 149
16460998 AAAATTTAAG
* * * * *
16461008 AAGCTTCTCTGAGCATAGGCTCAACAACTTTAAAATTTATCTTGAAAAAGCTTATCTCAGCAAAG
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTATCTTGAAAAAACTCATCTCAGCAAAG
* * * *
16461073 GCTTAACAACTTAAAAAAAAATCTCATCTTGAAAAAAGCTCTTTTTAGTAAAGGCTCAACAACTT
66 GCTTAACAACTTAAAAAAAAATCTCATCTTGAAAAAAGCTCCTCTCAGTAAAGGCTCAACAAATT
16461138 TAAAAATCTCATCTTGAAA
131 TAAAAATCTCATCTTGAAA
* * * * *
16461157 AAGCTCCTCTAAGCAGAGGCACAACAACTTTTAAAATTTATCTTGAAAAAACTCCTCTTAGTAGA
1 AAGCTCCTCTAAGCAGAGGCTCAACAAC-TTTAAAATTTATCTTGAAAAAACTCATCTCAGCAAA
* * *
16461222 GGCTTAACAACTT-TAAAAAAATCTCATCTT-AAAAAATGTTCCTCTCAGTAGAGGCTCAACAAA
65 GGCTTAACAACTTAAAAAAAAATCTCATCTTGAAAAAA-GCTCCTCTCAGTAAAGGCTCAACAAA
16461285 TTTAAAAATCT-ATCTTGAAA
129 TTTAAAAATCTCATCTTGAAA
* *
16461305 AAGCTCTTCTAAGCAGATGCTCAACAACTTTAAAA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAA
16461340 CTCTCATCTT
Statistics
Matches: 161, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
147 7 0.04
148 40 0.25
149 71 0.44
150 43 0.27
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (149 bp):
AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTATCTTGAAAAAACTCATCTCAGCAAAG
GCTTAACAACTTAAAAAAAAATCTCATCTTGAAAAAAGCTCCTCTCAGTAAAGGCTCAACAAATT
TAAAAATCTCATCTTGAAA
Found at i:16461397 original size:98 final size:97
Alignment explanation
Indices: 16461024--16461402 Score: 404
Period size: 100 Copynumber: 3.8 Consensus size: 97
16461014 CTCTGAGCAT
* * * *
16461024 AGGCTCAACAACTTT-AAAAT-TTATCTTGAAAAAGCTT-ATCTCAGCAAAGGCTTAACAACTTA
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAG-TTCCTCTCAGCAGAGGCTCAACAACTT-
* * * *
16461086 AAAAAAAATCTCATCTTGAAAAAAGCTCTTTTTAGTAA
64 --TAAAAAT-TTATCTTG-AAAAAGCTCTTCTTAGTAG
* * * *
16461124 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCACAACAACTTTT
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGTTCCTCTCAGCAGAGGCTCAACAACTTTA
* *
16461189 AAAATTTATCTTGAAAAAACTCCTCTTAGTAG
66 AAAATTTATCTTGAAAAAGCTCTTCTTAGTAG
* * * *
16461221 AGGCTTAACAACTTTAAAAAAATCTCATCTTAAAAAATGTTCCTCTCAGTAGAGGCTCAACAAAT
1 AGGCTCAACAACTTT--AAAAATCTCATCTTGAAAAA-GTTCCTCTCAGCAGAGGCTCAACAACT
* * *
16461286 TTAAAAATCTATCTTGAAAAAGCTCTTCTAAGCAG
63 TTAAAAATTTATCTTGAAAAAGCTCTTCTTAGTAG
* * * * * *
16461321 ATGCTCAACAACTTTAAAACTCTCATCTTGGAAAAAGTTTCTATCAGCAGAGGCTCAATAACTGT
1 AGGCTCAACAACTTTAAAAATCTCATCTT-GAAAAAGTTCCTCTCAGCAGAGGCTCAACAACTTT
16461386 AAAAATTTATCTTGAAA
65 AAAAATTTATCTTGAAA
16461403 GCGGCTCAAT
Statistics
Matches: 234, Mismatches: 38, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
97 29 0.12
98 59 0.25
99 29 0.12
100 79 0.34
101 6 0.03
102 32 0.14
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (97 bp):
AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGTTCCTCTCAGCAGAGGCTCAACAACTTTA
AAAATTTATCTTGAAAAAGCTCTTCTTAGTAG
Found at i:16461467 original size:48 final size:48
Alignment explanation
Indices: 16461427--16461620 Score: 225
Period size: 48 Copynumber: 4.1 Consensus size: 48
16461417 TTAAATTTTC
** * *
16461427 ATCTTGAAAAAGCTTTTCTAAGCAAATGCTCAACAACTTTAAAAATTT
1 ATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTT
* * * *
16461475 ATCTTGAAAAAG-TACCTCTCAGCAGAGGCTTAACAACTTTAAAAGTTC
1 ATCTTGAAAAAGCT-CCTCTAAGCAGAGGCTCAACAACTTTAAAAATTT
* *
16461523 ATTTTGAAAAAGCTCCTCTAAGCAGAGGCACAACAACTTTAAAAATTT
1 ATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTT
* * *
16461571 AT-TTGAAAAAGCTCATCTCAA-CAGAGGTTCAATAACTTT-AAAATTT
1 ATCTTGAAAAAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAATTT
16461617 ATCT
1 ATCT
16461621 GTTCTCGAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
46 9 0.07
47 32 0.26
48 82 0.66
49 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (48 bp):
ATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTT
Found at i:16461535 original size:131 final size:131
Alignment explanation
Indices: 16461296--16461531 Score: 341
Period size: 129 Copynumber: 1.8 Consensus size: 131
16461286 TTAAAAATCT
* * **
16461296 ATCTTGAAAAAGCTCTTCTAAGCAGATGCTCAACAACTTTAAAACTCTCATCTTGGAAAAAGTTT
1 ATCTTGAAAAAGCTCTTCTAAGCAAATGCTCAACAACTTTAAAAATCTCATCTTGGAAAAAGTAC
* *
16461361 CTATCAGCAGAGGCTCAATAACTGTAAAAATTTATCTTGAAAGCGGCTCAATGGCTTTAAATTTT
66 CTATCAGCAGAGGCTCAACAACTGTAAAAATTCATCTTGAAAGCGGCTCAATGGCTTTAAATTTT
16461426 C
131 C
* *
16461427 ATCTTGAAAAAGCTTTTCTAAGCAAATGCTCAACAACTTTAAAAAT-TTATCTT-GAAAAAGTAC
1 ATCTTGAAAAAGCTCTTCTAAGCAAATGCTCAACAACTTTAAAAATCTCATCTTGGAAAAAGTAC
* * * * *
16461490 CTCTCAGCAGAGGCTTAACAACTTTAAAAGTTCATTTTGAAA
66 CTATCAGCAGAGGCTCAACAACTGTAAAAATTCATCTTGAAA
16461532 AAGCTCCTCT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 43 0.47
130 6 0.07
131 43 0.47
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.31
Consensus pattern (131 bp):
ATCTTGAAAAAGCTCTTCTAAGCAAATGCTCAACAACTTTAAAAATCTCATCTTGGAAAAAGTAC
CTATCAGCAGAGGCTCAACAACTGTAAAAATTCATCTTGAAAGCGGCTCAATGGCTTTAAATTTT
C
Found at i:16474612 original size:23 final size:23
Alignment explanation
Indices: 16474578--16474626 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
16474568 TTTATAGAGC
* *
16474578 TTTCTGATATTCAAATCTCAGAT
1 TTTCTGAAATTCAAATCCCAGAT
*
16474601 TTTCTGAAATTCAAATCCCATAT
1 TTTCTGAAATTCAAATCCCAGAT
16474624 TTT
1 TTT
16474627 TAATCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (23 bp):
TTTCTGAAATTCAAATCCCAGAT
Found at i:16474790 original size:24 final size:25
Alignment explanation
Indices: 16474754--16474813 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
16474744 ACTTAATCGG
*
16474754 ATAAGGAAA-AAAAAAAAGGAAA-AA
1 ATAA-GAAAGAAAAAAAAAGAAATAA
*
16474778 ATAAGAAAGAAAAAAAAATAAATAA
1 ATAAGAAAGAAAAAAAAAGAAATAA
16474803 A-AAGAAAGAAA
1 ATAAGAAAGAAA
16474814 GAAATTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 4 0.12
24 25 0.78
25 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (25 bp):
ATAAGAAAGAAAAAAAAAGAAATAA
Found at i:16474804 original size:28 final size:27
Alignment explanation
Indices: 16474759--16474817 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
16474749 ATCGGATAAG
*
16474759 GAAAAAAAAAAAGGAAAAA-ATAAGAAA
1 GAAAAAAAAAAAAGAAAAAGA-AAGAAA
*
16474786 GAAAAAAAAATAAATAAAAAGAAAGAAA
1 GAAAAAAAAA-AAAGAAAAAGAAAGAAA
16474814 GAAA
1 GAAA
16474818 TTATTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 17 0.61
29 1 0.04
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (27 bp):
GAAAAAAAAAAAAGAAAAAGAAAGAAA
Found at i:16475470 original size:15 final size:14
Alignment explanation
Indices: 16475448--16475494 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
16475438 TCATTGTCCT
16475448 TTTTTTTGTTTCAA
1 TTTTTTTGTTTCAA
**
16475462 TTCTTTTTGAAT-AA
1 TT-TTTTTGTTTCAA
16475476 TTTTTTTGTCTTCAA
1 TTTTTTTGT-TTCAA
16475491 TTTT
1 TTTT
16475495 CTTTTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
13 6 0.23
14 7 0.27
15 13 0.50
ACGTcount: A:0.17, C:0.09, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTTTTGTTTCAA
Found at i:16475833 original size:18 final size:19
Alignment explanation
Indices: 16475805--16475840 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16475795 TTGGCAAATT
*
16475805 AACTTTATTTTTTATTTTA
1 AACTTTATTTTTAATTTTA
16475824 AACTTT-TTTTTAATTTT
1 AACTTTATTTTTAATTTT
16475841 CTTTTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (19 bp):
AACTTTATTTTTAATTTTA
Found at i:16476181 original size:23 final size:22
Alignment explanation
Indices: 16476155--16476255 Score: 66
Period size: 23 Copynumber: 4.5 Consensus size: 22
16476145 TGTTAATATA
16476155 TAATTTAA-TAAAATTTTAAAATT
1 TAATTTAATTAAAA-TTT-AAATT
*
16476178 TAATTTAATTTAAATTTAAATT
1 TAATTTAATTAAAATTTAAATT
* *
16476200 TAAATATT-TTTAAAA-TT-ATTT
1 T-AAT-TTAATTAAAATTTAAATT
* *
16476221 TAATTTAAATTGAATTTTATTAATT
1 TAATTT-AATTAAAATTTA--AATT
16476246 TAATTTAATT
1 TAATTTAATT
16476256 TGATTTATCA
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
19 2 0.03
20 3 0.05
21 8 0.13
22 10 0.16
23 19 0.31
24 10 0.16
25 9 0.15
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
TAATTTAATTAAAATTTAAATT
Found at i:16476182 original size:5 final size:5
Alignment explanation
Indices: 16476174--16476262 Score: 58
Period size: 5 Copynumber: 17.2 Consensus size: 5
16476164 AAAATTTTAA
* *
16476174 AATTT AATTT AATTT AAATTT AAATTT AAATATT --TTT AAAATT ATTTT
1 AATTT AATTT AATTT -AATTT -AATTT -AAT-TT AATTT -AATTT AATTT
* * *
16476222 AATTT AAATTG AATTT TA-TT AATTT AATTT AATTT GATTT A
1 AATTT -AATTT AATTT AATTT AATTT AATTT AATTT AATTT A
16476263 TCAAATTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
3 2 0.03
4 4 0.06
5 38 0.57
6 21 0.31
7 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:16476195 original size:6 final size:6
Alignment explanation
Indices: 16476173--16476204 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
16476163 TAAAATTTTA
16476173 AAATTT -AATTT -AATTT AAATTT AAATTT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAAT
16476205 ATTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:16476272 original size:25 final size:26
Alignment explanation
Indices: 16476217--16476282 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
16476207 TTTTAAAATT
* *
16476217 ATTTTAATTTAAATTGAATTTTATTA
1 ATTTTAATTTAATTTGAATTTTATAA
16476243 A-TTTAATTTAATTTG-A-TTTATCAA
1 ATTTTAATTTAATTTGAATTTTAT-AA
*
16476267 ATTTTAAATTTTATTT
1 ATTTT-AATTTAATTT
16476283 TTTTGAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 5 0.15
24 3 0.09
25 16 0.47
26 10 0.29
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (26 bp):
ATTTTAATTTAATTTGAATTTTATAA
Found at i:16476866 original size:24 final size:25
Alignment explanation
Indices: 16476830--16476886 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
16476820 TATTTTTTGG
* *
16476830 TTAAAAATTATTA-ATTT-TTATTAA
1 TTAAAAATAATTATATTTGATATT-A
16476854 TTAAAAATAATTATATTTGATATTA
1 TTAAAAATAATTATATTTGATATTA
16476879 TTAAAAAT
1 TTAAAAAT
16476887 TAAATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 12 0.41
25 13 0.45
26 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TTAAAAATAATTATATTTGATATTA
Found at i:16478738 original size:22 final size:21
Alignment explanation
Indices: 16478695--16478738 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
16478685 TACTAATATA
* *
16478695 TATTTTTTTATTTTTATCTTT
1 TATTTTTTTATTTTCATATTT
*
16478716 TATTTTATTTATTTTCGTATTT
1 TATTTT-TTTATTTTCATATTT
16478738 T
1 T
16478739 TATATATCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTTTTTATTTTCATATTT
Found at i:16479151 original size:12 final size:12
Alignment explanation
Indices: 16479134--16479159 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16479124 AATTTCCAGA
16479134 TTCCGACGAAAT
1 TTCCGACGAAAT
16479146 TTCCGACGAAAT
1 TTCCGACGAAAT
16479158 TT
1 TT
16479160 GAATTTTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (12 bp):
TTCCGACGAAAT
Found at i:16479668 original size:23 final size:23
Alignment explanation
Indices: 16479625--16479668 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16479615 CGCTCCAGGT
* *
16479625 TTTTTTTTTTTTCTTTCTTTGAA
1 TTTTTTTTCTTTCTTTATTTGAA
*
16479648 TTTTTTTTCTTTGTTTATTTG
1 TTTTTTTTCTTTCTTTATTTG
16479669 TTTATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (23 bp):
TTTTTTTTCTTTCTTTATTTGAA
Found at i:16479888 original size:116 final size:116
Alignment explanation
Indices: 16479759--16480274 Score: 805
Period size: 116 Copynumber: 4.4 Consensus size: 116
16479749 TAAAAATAAA
*
16479759 AAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
1 AAATTTC-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
* *
16479824 TTCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTCAGAAAT
65 TTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
16479876 AAATTTCC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
1 AAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* * *
16479939 CCAAAAAATACTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
66 TCAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
*
16479990 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AATTT
1 AAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
*
16480054 TCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCATAAAT
66 T-CAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
16480106 AAATTT-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
1 AAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* *
16480170 TCAAAAAAAGAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAAT
66 TC-AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT
16480223 CGAAATTTCC-AAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCC
1 --AAATTTCCAAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCC
16480275 CTCAAAAAAA
Statistics
Matches: 372, Mismatches: 14, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
113 1 0.00
114 107 0.29
115 57 0.15
116 113 0.30
117 46 0.12
118 3 0.01
119 44 0.12
120 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (116 bp):
AAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
TCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
Found at i:16480053 original size:58 final size:56
Alignment explanation
Indices: 16479769--16480274 Score: 721
Period size: 57 Copynumber: 8.7 Consensus size: 56
16479759 AAATTTCAAA
16479769 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
16479827 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTCAGAAATAAATTTC
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTC
*
16479883 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
* * * *
16479940 CAAAAAATACTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
1 AAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
16479997 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAATTTTC
1 --AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
* * *
16480056 CAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCATAAATAAATTTC
1 AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
16480113 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 -AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
*
16480172 AAAAAAAGAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
1 AAAAAAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTT-C
16480233 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCC
16480275 CTCAAAAAAA
Statistics
Matches: 411, Mismatches: 19, Indels: 34
0.89 0.04 0.07
Matches are distributed among these distances:
56 10 0.02
57 200 0.49
58 61 0.15
59 93 0.23
60 35 0.09
61 12 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (56 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:16487062 original size:12 final size:12
Alignment explanation
Indices: 16487047--16487102 Score: 60
Period size: 12 Copynumber: 4.4 Consensus size: 12
16487037 TTATTTTTTA
16487047 AATTTTATATTT
1 AATTTTATATTT
16487059 AATTTTATATATT
1 AATTTTATAT-TT
*
16487072 -TTTATATATATTT
1 AATT-T-TATATTT
16487085 AATTTTATATTT
1 AATTTTATATTT
16487097 ATATTT
1 A-ATTT
16487103 AAAATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 20 0.54
13 10 0.27
14 7 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
AATTTTATATTT
Found at i:16487069 original size:14 final size:14
Alignment explanation
Indices: 16487043--16487094 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
16487033 AAAATTATTT
*
16487043 TTTAAATTT-TATA
1 TTTAATTTTATATA
16487056 TTTAATTTTATATA
1 TTTAATTTTATATA
*
16487070 TTT--TTATATATA
1 TTTAATTTTATATA
16487082 TTTAATTTTATAT
1 TTTAATTTTATAT
16487095 TTATATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 11 0.33
13 8 0.24
14 14 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAATTTTATATA
Found at i:16491395 original size:27 final size:26
Alignment explanation
Indices: 16491365--16491427 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
16491355 ATTTAAAAAG
16491365 TAATAATATTTAAAATTTAAAAATTT-T
1 TAATAATATTT-AAA-TTAAAAATTTAT
* * *
16491392 TAATTGATACTTAAATTATAAATTTAT
1 TAA-TAATATTTAAATTAAAAATTTAT
16491419 TAATAATAT
1 TAATAATAT
16491428 GATATTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
26 13 0.45
27 10 0.34
28 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TAATAATATTTAAATTAAAAATTTAT
Found at i:16493307 original size:24 final size:21
Alignment explanation
Indices: 16493280--16493323 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16493270 ATAAGTTATT
16493280 TATGATATTAATGCAATTAAAAAA
1 TATG-TATTAAT--AATTAAAAAA
*
16493304 TATGTATTTATAATTAAAAA
1 TATGTATTAATAATTAAAAA
16493324 CTAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (21 bp):
TATGTATTAATAATTAAAAAA
Found at i:16494337 original size:27 final size:24
Alignment explanation
Indices: 16494279--16494338 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 24
16494269 AAAATTAATA
16494279 TAAATT-ATTAATTTTTTTAATTG
1 TAAATTAATTAATTTTTTTAATTG
*
16494302 TAAAATAATTAATTATTTATTAATCTG
1 TAAATTAATTAATT-TTT-TTAAT-TG
*
16494329 TTAATTAATT
1 TAAATTAATT
16494339 TTAATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 5 0.17
24 7 0.23
25 3 0.10
26 5 0.17
27 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (24 bp):
TAAATTAATTAATTTTTTTAATTG
Found at i:16495873 original size:13 final size:12
Alignment explanation
Indices: 16495847--16495931 Score: 70
Period size: 12 Copynumber: 7.0 Consensus size: 12
16495837 AATGATAAGT
16495847 TATAAAATAAAA
1 TATAAAATAAAA
16495859 TATAAAATCAAAA
1 TATAAAAT-AAAA
16495872 TATAAAAATAAAA
1 TAT-AAAATAAAA
16495885 TAAATAGAAATAAAA
1 T--ATA-AAATAAAA
**
16495900 T-TTTAA-AAAA
1 TATAAAATAAAA
16495910 TA-AAAATAAAA
1 TATAAAATAAAA
*
16495921 TAGAAAA-AAAA
1 TATAAAATAAAA
16495932 CTTGTGATCG
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
10 7 0.11
11 12 0.20
12 13 0.21
13 12 0.20
14 6 0.10
15 11 0.18
ACGTcount: A:0.74, C:0.01, G:0.02, T:0.22
Consensus pattern (12 bp):
TATAAAATAAAA
Found at i:16495896 original size:36 final size:35
Alignment explanation
Indices: 16495851--16495922 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 35
16495841 ATAAGTTATA
*
16495851 AAATAAAATATAAA-ATCAAAATATAAAAATAAAAT
1 AAATAAAATA-AAATATCAAAAAATAAAAATAAAAT
* *
16495886 AAATAGAAATAAAATTTTAAAAAATAAAAATAAAAT
1 AAATA-AAATAAAATATCAAAAAATAAAAATAAAAT
16495922 A
1 A
16495923 GAAAAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 8 0.25
36 24 0.75
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (35 bp):
AAATAAAATAAAATATCAAAAAATAAAAATAAAAT
Found at i:16496741 original size:3 final size:3
Alignment explanation
Indices: 16496735--16496773 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
16496725 AAGAAGAAAA
16496735 AAT AAT AAT AAT AA- AA- AAT AAT AAT -AT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16496774 TAGTTAGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 8 0.24
3 25 0.76
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16496752 original size:16 final size:15
Alignment explanation
Indices: 16496731--16496773 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
16496721 ATGAAAGAAG
16496731 AAAAAATAATAATAAT
1 AAAAAATAATAAT-AT
16496747 AAAAAATAATAATAT
1 AAAAAATAATAATAT
*
16496762 AATAATATAATA
1 AA-AAAATAATA
16496774 TAGTTAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAATAATAATAT
Found at i:16496765 original size:5 final size:5
Alignment explanation
Indices: 16496755--16496913 Score: 89
Period size: 5 Copynumber: 32.6 Consensus size: 5
16496745 ATAAAAAATA
* *
16496755 ATAAT AT-A- ATAAT ATAAT ATAGT -TAGT ATAAT ATAAT ATAAT A-AAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * **
16496801 ATGAT ATAAT AATGAT ATAAC ATGAT ATAAT A-AGAT ATAAT A-ACC ATAAT
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT
* ** * * * * *
16496851 ATAGT ATCTT ACAAT ATATT ATAAT ATAAT ATACT AT-AT AATAAT ACATT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
*
16496901 ATAAT ATACT ATA
1 ATAAT ATAAT ATA
16496914 TAAAACAAGA
Statistics
Matches: 114, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
3 2 0.02
4 14 0.12
5 91 0.80
6 7 0.06
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:16496796 original size:10 final size:10
Alignment explanation
Indices: 16496736--16496913 Score: 89
Period size: 10 Copynumber: 17.8 Consensus size: 10
16496726 AGAAGAAAAA
16496736 ATAATAATAAT
1 ATAAT-ATAAT
* *
16496747 AAAAAATAAT
1 ATAATATAAT
16496757 A-ATATAATAAT
1 ATA-AT-ATAAT
*
16496768 ATAATATAGT
1 ATAATATAAT
*
16496778 -TAGTATAAT
1 ATAATATAAT
16496787 ATAATATAAT
1 ATAATATAAT
*
16496797 A-AATATGAT
1 ATAATATAAT
*
16496806 ATAATAATGAT
1 ATAAT-ATAAT
* *
16496817 ATAACATGAT
1 ATAATATAAT
16496827 ATAATA-AGAT
1 ATAATATA-AT
**
16496837 ATAATA-ACC
1 ATAATATAAT
*
16496846 ATAATATAGT
1 ATAATATAAT
** *
16496856 ATCTTACAAT
1 ATAATATAAT
*
16496866 ATATTATAAT
1 ATAATATAAT
*
16496876 ATAATATACT
1 ATAATATAAT
16496886 AT-ATAATAAT
1 ATAAT-ATAAT
* *
16496896 ACATTATAAT
1 ATAATATAAT
*
16496906 ATACTATA
1 ATAATATA
16496914 TAAAACAAGA
Statistics
Matches: 129, Mismatches: 28, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
9 24 0.19
10 83 0.64
11 21 0.16
12 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (10 bp):
ATAATATAAT
Found at i:16496891 original size:12 final size:12
Alignment explanation
Indices: 16496874--16496916 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
16496864 ATATATTATA
16496874 ATATAATATACT
1 ATATAATATACT
16496886 ATATAATAATAC-
1 ATATAAT-ATACT
16496898 ATTATAATATACT
1 A-TATAATATACT
16496911 ATATAA
1 ATATAA
16496917 AACAAGACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATAATATACT
Found at i:16496941 original size:28 final size:27
Alignment explanation
Indices: 16496876--16496947 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
16496866 ATATTATAAT
* * *
16496876 ATAATATACTATAT--AATAATACATT
1 ATAATATACTATATAAAACAAGACATA
16496901 ATAATATACTATATAAAACAAGACCATA
1 ATAATATACTATATAAAACAAGA-CATA
16496929 ATAATATACTATAATAAAA
1 ATAATATACTAT-ATAAAA
16496948 AAAAATCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.35
27 5 0.12
28 15 0.38
29 6 0.15
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (27 bp):
ATAATATACTATATAAAACAAGACATA
Found at i:16496942 original size:13 final size:13
Alignment explanation
Indices: 16496876--16496945 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
16496866 ATATTATAAT
16496876 ATAATATACTAT-
1 ATAATATACTATA
*
16496888 ATAATAATAC-ATT
1 ATAAT-ATACTATA
16496901 ATAATATACTATA
1 ATAATATACTATA
* * * *
16496914 TAAAACAAGACCATA
1 -ATAA-TATACTATA
16496929 ATAATATACTATA
1 ATAATATACTATA
16496942 ATAA
1 ATAA
16496946 AAAAAAATCA
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
12 11 0.25
13 21 0.48
14 6 0.14
15 6 0.14
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.33
Consensus pattern (13 bp):
ATAATATACTATA
Found at i:16497372 original size:56 final size:56
Alignment explanation
Indices: 16497312--16497436 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 56
16497302 TTGAGGTTGA
* *
16497312 ATGACCAAGATTGAA-TCGCAAGTCTTGATAACCAACCT-AAATTGAGTT-AAGATCAG
1 ATGACCAAGATTGAACT-GCAAGTCTAGATAACCAACCTGAAA-CGAGTTGAAG-TCAG
***
16497368 ATGACC-AGATTGAACTGCAAGTCTAGATAATTGACCTGAAACGAGTTGAAGTCAG
1 ATGACCAAGATTGAACTGCAAGTCTAGATAACCAACCTGAAACGAGTTGAAGTCAG
*
16497423 ATGATCAAGATTGA
1 ATGACCAAGATTGA
16497437 GTAATAAGTC
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
55 39 0.66
56 20 0.34
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (56 bp):
ATGACCAAGATTGAACTGCAAGTCTAGATAACCAACCTGAAACGAGTTGAAGTCAG
Found at i:16499912 original size:62 final size:62
Alignment explanation
Indices: 16499813--16499932 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
16499803 CTCATTCACT
*
16499813 TTTTAGTTGATAGATGATCAAGGTTGAATCCCCAAATACCTTTAATACTTTTACTTTTCAGC
1 TTTTAGTTGATAAATGATCAAGGTTGAATCCCCAAATACCTTTAATACTTTTACTTTTCAGC
* *
16499875 TTTTAGTTGATAAATGATCAAGGTTGAATCCCTAAATACCTTTAATACTTTTATTTTT
1 TTTTAGTTGATAAATGATCAAGGTTGAATCCCCAAATACCTTTAATACTTTTACTTTT
16499933 TTATCAAGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (62 bp):
TTTTAGTTGATAAATGATCAAGGTTGAATCCCCAAATACCTTTAATACTTTTACTTTTCAGC
Done.